Entry Database : PDB / ID : 3gv4 Structure visualization Downloads & linksTitle Crystal structure of human HDAC6 zinc finger domain and ubiquitin C-terminal peptide RLRGG ComponentsHistone deacetylase 6 ubiquitin C-terminal peptide RLRGG DetailsKeywords HYDROLASE / HDAC6 / zinc finger / ubiquitin C-terminal peptide RLRGG / SGC / Actin-binding / Chromatin regulator / Cytoplasm / Metal-binding / Nucleus / Phosphoprotein / Polymorphism / Repressor / Transcription / Transcription regulation / Ubl conjugation / Zinc / Zinc-finger / Structural Genomics / Structural Genomics ConsortiumFunction / homology Function and homology informationFunction Domain/homology Component
negative regulation of hydrogen peroxide metabolic process / cellular response to topologically incorrect protein / polyubiquitinated misfolded protein transport / positive regulation of cellular response to oxidative stress / erythrocyte enucleation / negative regulation of aggrephagy / positive regulation of cholangiocyte proliferation / response to misfolded protein / negative regulation of oxidoreductase activity / regulation of microtubule-based movement ... negative regulation of hydrogen peroxide metabolic process / cellular response to topologically incorrect protein / polyubiquitinated misfolded protein transport / positive regulation of cellular response to oxidative stress / erythrocyte enucleation / negative regulation of aggrephagy / positive regulation of cholangiocyte proliferation / response to misfolded protein / negative regulation of oxidoreductase activity / regulation of microtubule-based movement / parkin-mediated stimulation of mitophagy in response to mitochondrial depolarization / negative regulation of protein-containing complex disassembly / protein-containing complex disassembly / negative regulation of axon extension involved in axon guidance / regulation of establishment of protein localization / positive regulation of tubulin deacetylation / tubulin deacetylation / regulation of autophagy of mitochondrion / Cilium Assembly / peptidyl-lysine deacetylation / tubulin deacetylase activity / collateral sprouting / Transcriptional regulation by RUNX2 / lysosome localization / misfolded protein binding / negative regulation of protein acetylation / negative regulation of microtubule depolymerization / ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway / protein deacetylation / cilium disassembly / response to growth factor / dendritic spine morphogenesis / histone deacetylase / aggresome assembly / regulation of androgen receptor signaling pathway / protein lysine deacetylase activity / positive regulation of signaling receptor activity / cellular response to misfolded protein / positive regulation of dendrite morphogenesis / cellular response to parathyroid hormone stimulus / aggresome / Hydrolases; Acting on carbon-nitrogen bonds, other than peptide bonds; In linear amides / regulation of fat cell differentiation / microtubule associated complex / histone deacetylase activity / response to corticosterone / dynein complex binding / negative regulation of gene expression, epigenetic / protein quality control for misfolded or incompletely synthesized proteins / positive regulation of epithelial cell migration / axonal transport of mitochondrion / Notch-HLH transcription pathway / response to dexamethasone / beta-tubulin binding / cell leading edge / RUNX2 regulates osteoblast differentiation / histone deacetylase complex / response to immobilization stress / polyubiquitin modification-dependent protein binding / cilium assembly / alpha-tubulin binding / HSF1 activation / regulation of macroautophagy / negative regulation of protein-containing complex assembly / inclusion body / axon cytoplasm / response to amphetamine / multivesicular body / epigenetic regulation of gene expression / positive regulation of synaptic transmission, glutamatergic / transcription corepressor binding / ciliary basal body / ubiquitin binding / regulation of autophagy / caveola / actin filament organization / negative regulation of proteolysis / intracellular protein transport / Late endosomal microautophagy / protein destabilization / Hsp90 protein binding / regulation of protein stability / tau protein binding / NOTCH1 Intracellular Domain Regulates Transcription / histone deacetylase binding / Constitutive Signaling by NOTCH1 PEST Domain Mutants / Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants / beta-catenin binding / autophagy / Aggrephagy / Chaperone Mediated Autophagy / cellular response to hydrogen peroxide / protein polyubiquitination / positive regulation of peptidyl-serine phosphorylation / actin binding / cellular response to heat / microtubule binding / perikaryon / microtubule / RNA polymerase II cis-regulatory region sequence-specific DNA binding Similarity search - Function Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger / Zinc finger, UBP-type / Zn-finger in ubiquitin-hydrolases and other protein / Zinc finger UBP-type profile. / : / Histone deacetylase family / Histone deacetylase domain / Histone deacetylase domain superfamily / Histone deacetylase domain / Zinc/RING finger domain, C3HC4 (zinc finger) ... Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger / Zinc finger, UBP-type / Zn-finger in ubiquitin-hydrolases and other protein / Zinc finger UBP-type profile. / : / Histone deacetylase family / Histone deacetylase domain / Histone deacetylase domain superfamily / Histone deacetylase domain / Zinc/RING finger domain, C3HC4 (zinc finger) / Ureohydrolase domain superfamily / Herpes Virus-1 / Zinc finger, RING/FYVE/PHD-type / 2-Layer Sandwich / Alpha Beta Similarity search - Domain/homologyBiological species Homo sapiens (human)Method X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution : 1.72 Å DetailsAuthors Dong, A. / Ravichandran, M. / Loppnau, P. / Li, Y. / MacKenzie, F. / Kozieradzki, I. / Edwards, A.M. / Arrowsmith, C.H. / Weigelt, J. / Bountra, C. ...Dong, A. / Ravichandran, M. / Loppnau, P. / Li, Y. / MacKenzie, F. / Kozieradzki, I. / Edwards, A.M. / Arrowsmith, C.H. / Weigelt, J. / Bountra, C. / Bochkarev, A. / Dhe-Paganon, S. / Min, J. / Ouyang, H. / Structural Genomics Consortium (SGC) CitationJournal : To be Published Title : Crystal structure of human HDAC6 zinc finger domain and ubiquitin C-terminal peptide RLRGGAuthors : Dong, A. / Ravichandran, M. / Loppnau, P. / Li, Y. / MacKenzie, F. / Kozieradzki, I. / Edwards, A.M. / Arrowsmith, C.H. / Weigelt, J. / Bountra, C. / Bochkarev, A. / Dhe-Paganon, S. / Min, J. / Ouyang, H. History Deposition Mar 30, 2009 Deposition site : RCSB / Processing site : RCSBRevision 1.0 Apr 28, 2009 Provider : repository / Type : Initial releaseRevision 1.1 Jul 13, 2011 Group : Version format complianceRevision 1.2 Nov 1, 2017 Group : Refinement description / Category : software / Item : _software.nameRevision 1.3 Sep 6, 2023 Group : Data collection / Database references ... Data collection / Database references / Derived calculations / Refinement description Category : chem_comp_atom / chem_comp_bond ... chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model / struct_site Item : _database_2.pdbx_DOI / _database_2.pdbx_database_accession ... _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
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